19 Matching Annotations

Feb 2025
eragriculture.github.io eragriculture.github.io

Using OpenAlex: A case for Agroecology in Latin America and the Caribbean

19
1. p.steward 18 Feb 2025
 
 in Public
 
 Testing results against WoS
 
 Can we add scopus too? this would be cool for making the venn style diagram.
2. p.steward 18 Feb 2025
 
 in Public
 
 Matched Papers (WoS & OpenAlex) Also Follow This Distribution:
 
 is it possible to make a ven style diagram?
3. p.steward 18 Feb 2025
 
 in Public
 
 Description of the Matching Process
 
 can we make a generalizable function that takes list of dois list(a=dois1,b=ois,c=scopus) or titles simplifies them and returns matches/non-matches for a. in b, b in a, etc.
4. p.steward 18 Feb 2025
 
 in Public
 
 Description of the Matching Process
 
 does title matching add anything extra compared to the doi matching?
5. p.steward 18 Feb 2025
 
 in Public
 
 Strict Character Limit on Search Queries – One of OpenAlex’s biggest drawbacks is its character limit on search strings, restricting complex queries with many Boolean operators. This limitation makes it difficult to conduct highly specific, detailed searches similar to Web of Science or Scopus.
 
 Discuss potential work arounds for this (for example coding a function that would work like the combine search option in Scopus).
 
 One needs to be a little saavy here to not have search blocks that return millions of hits.
6. p.steward 18 Feb 2025
 
 in Public
 
 Strict Character Limit on Search Queries – One of OpenAlex’s biggest drawbacks is its character limit on search strings, restricting complex queries with many Boolean operators. This limitation makes it difficult to conduct highly specific, detailed searches similar to Web of Science or Scopus.
 
 what is the specific limit? around 4000k characters? and 100 terms?
7. p.steward 18 Feb 2025
 
 in Public
 
 Very few papers have a relevance score above 50. This suggests that only a small fraction of articles are extremely relevant to the exact search terms used. 0501001502000200400600Distribution of Relevance ScoresRelevance ScoreNumber of Papers.cls-1 {fill: #3f4f75;} .cls-2 {fill: #80cfbe;} .cls-3 {fill: #fff;}plotly-logomark 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","x"]},"highlight":{"on":"plotly_click","persistent":false,"dynamic":false,"selectize":false,"opacityDim":0.20000000000000001,"selected":{"opacity":1},"debounce":0},"shinyEvents":["plotly_hover","plotly_click","plotly_selected","plotly_relayout","plotly_brushed","plotly_brushing","plotly_clickannotation","plotly_doubleclick","plotly_deselect","plotly_afterplot","plotly_sunburstclick"],"base_url":"https://plot.ly"},"evals":[],"jsHooks":[]}
 
 Are you seeing the axis labels and legend? I thought they were there the first time I looked, but now I do not see them. Odd.
8. p.steward 18 Feb 2025
 
 in Public
 
 Unlike static bibliographic databases
 
 What is a static biblographic database? scopus and WoS are both dynamic
9. p.steward 18 Feb 2025
 
 in Public
 
 region_terms
 
 This should be product_terms
10. p.steward 18 Feb 2025
 
 in Public
 
 #> 1 OpenAlex Only 12427
 
 damn the wrapper I made only finds around 1685 hits, I wonder if it is to do with the type of search?
 
 api_endpoint <- oa_query( entity = "works", title_and_abstract.search = search_string, from_publication_date = from_date, to_publication_date = to_date )
 
 let me check how the quoting is being handled I think it something to do with this function: api_endpoint <- oa_query( entity = "works", title_and_abstract.search = search_string, from_publication_date = from_date, to_publication_date = to_date )
11. p.steward 18 Feb 2025
 
 in Public
 
 fetch_all_hits <- function(start_url) { all_hits <- list() cursor <- "*" # initial cursor value repeat { # URL-encode only the cursor value (so "*" becomes "%2A") cursor_encoded <- URLencode(cursor, reserved = TRUE) current_url <- paste0(start_url, "&cursor=", cursor_encoded) message("Requesting: ", current_url) # Make the API request res <- oa_request(query_url = current_url) hits_df <- oa2df(res, entity = "works") # If no records returned, exit the loop if (nrow(hits_df) == 0) break all_hits[[length(all_hits) + 1]] <- hits_df # Get the next cursor from the attributes new_cursor <- attr(hits_df, "next_cursor") if (is.null(new_cursor) || new_cursor == cursor) break cursor <- new_cursor message("Fetched page ", length(all_hits), " with ", nrow(hits_df), " records.") } data.table::rbindlist(all_hits, fill = TRUE) } 2.Executing the Query and Retrieving Results
 
 this is for all times?
12. p.steward 18 Feb 2025
 
 in Public
 
 2.Define Search Term Categories:
 
 we'll need some justification for these search terms that relates to the the ERA synthesis infrastructure.
13. p.steward 18 Feb 2025
 
 in Public
 
 OpenAlex is an open source platform that offers comprehensive, freely accessible information about research publications, authors, and institutions. Introduced in January 2022 by OurResearch, OpenAlex was developed as a successor to the now-discontinued Microsoft Academic Graph (MAG). Although it does not encompass every feature of MAG—for instance, patent data is not included—OpenAlex significantly expands on its predecessor’s scope (Priem et al., 2022). A key strength of OpenAlex is its open licensing model, which ensures that all data, code, and related tools are publicly available. This commitment to openness promotes transparency, reproducibility, and innovation in research practices (Priem et al., 2022). As a result, many academic institutions are increasingly turning to OpenAlex as a viable alternative to proprietary bibliometric tools. For example, Sorbonne University has recently transitioned from using traditional resources such as Web of Science to leveraging OpenAlex and other open-source solutions, in line with its broader policy of openness and sustainable research practices (Scheidsteger & Haunschild, 2022; Culbert et al., 2024) Furthermore, OpenAlex incorporates advanced artificial intelligence techniques, including natural language processing and machine learning, to enhance the quality and relevance of its metadata (Priem et al., 2022). In some instances, these AI-driven methods leverage large language models to support tasks such as automatic classification, entity disambiguation, and semantic search. Such applications of AI help ensure that the platform remains a cutting-edge resource for research.
 
 Why do we care about this? what are the problems with paywalled databases making programmatic access very difficult or impossible for most users? how can this revolutionize the way we can perform and evaluate searches?
 
 Let's really sell it.
 
 We should link this to the ACDC project and agroecology, so it is relevant to the donors interests.
14. p.steward 18 Feb 2025
 
 in Public
 
 Using OpenAlex: A case for Agroecology in Latin America and the Caribbean
 
 We need to add an acknowlegements section for IDRC and the ACDC project, you can get this from the project proposal doc I will share with you.
15. p.steward 18 Feb 2025
 
 in Public
 
 Limitations of the OpenAlex API
 
 Add a conclusions section, despite the limitations......
 
 perhaps include a coming soon section for new content we want to develop.
16. p.steward 18 Feb 2025
 
 in Public
 
 Generate Search Strings
 
 Would be useful to add a section on the differences (limitations) vs WoS/Scopus, for example:
 
 Wildcards and other special characters NEAR not allowed Character and term limits in API and website Cannot combine searchs?
 
 But note unless your are running very detailed searches it should be fit for purpose for most use-cases.
17. p.steward 18 Feb 2025
 
 in Public
 
 Limited Peer-Reviewed Filtering – Unlike WoS or Scopus, OpenAlex does not have a built-in peer-reviewed filter, meaning some search results may include preprints and other non-peer-reviewed content.
 
 how can this be worked around?
18. p.steward 18 Feb 2025
 
 in Public
 
 Very few papers have a relevance score above 50. This suggests that only a small fraction of articles are extremely relevant to the exact search terms used. 0501001502000200400600Distribution of Relevance ScoresRelevance ScoreNumber of Papers.cls-1 {fill: #3f4f75;} .cls-2 {fill: #80cfbe;} .cls-3 {fill: #fff;}plotly-logomark 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 How does one interpret a relevance score? is it relevant to the search or standardized somehow?
19. p.steward 18 Feb 2025
 
 in Public
 
 Description of the Matching Process We conducted a comparison between OpenAlex and Web of Science (WoS) results to determine the overlap between the two database
 
 Can you add how the WoS of science search was conducted? Did it use the same boolean search terms, etc.? Perhaps add the WoS search and additional parameters in their entirity.
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api_endpoint <- oa_query( entity = "works", title_and_abstract.search = search_string, from_publication_date = from_date, to_publication_date = to_date )

let me check how the quoting is being handled

I think it something to do with this function:

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p.steward

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eragriculture.github.io/AI/docs/OA-vignette.html

p.steward

Annotations: 19

Joined: January 15, 2025

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